EP1076707A1 - PLASMIDE POUR L'EXPRESSION DANS $i(PICHIA CIFERRII), ET PROCEDE DE TRANSFORMATION FAISANT APPEL A CE PLASMIDE - Google Patents

PLASMIDE POUR L'EXPRESSION DANS $i(PICHIA CIFERRII), ET PROCEDE DE TRANSFORMATION FAISANT APPEL A CE PLASMIDE

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Publication number
EP1076707A1
EP1076707A1 EP98951798A EP98951798A EP1076707A1 EP 1076707 A1 EP1076707 A1 EP 1076707A1 EP 98951798 A EP98951798 A EP 98951798A EP 98951798 A EP98951798 A EP 98951798A EP 1076707 A1 EP1076707 A1 EP 1076707A1
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EP
European Patent Office
Prior art keywords
gene
plasmid
pichia ciferrii
pichia
expression cassette
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
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EP98951798A
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German (de)
English (en)
Inventor
Sang Ki Rhee
Jung Hoon Bae
Eui Sung Choi
Jung Hoon Sohn
Hyun Ah Kang
Chang Seo Park
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Korea Advanced Institute of Science and Technology KAIST
Korea Institute of Science and Technology KIST
Doosan Corp
Original Assignee
Korea Advanced Institute of Science and Technology KAIST
Korea Institute of Science and Technology KIST
Doosan Corp
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Priority claimed from KR1019980016309A external-priority patent/KR100267668B1/ko
Priority claimed from KR1019980016310A external-priority patent/KR100267666B1/ko
Priority claimed from KR1019980033969A external-priority patent/KR100287483B1/ko
Application filed by Korea Advanced Institute of Science and Technology KAIST, Korea Institute of Science and Technology KIST, Doosan Corp filed Critical Korea Advanced Institute of Science and Technology KAIST
Publication of EP1076707A1 publication Critical patent/EP1076707A1/fr
Withdrawn legal-status Critical Current

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    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/37—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from fungi
    • C07K14/39—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from fungi from yeasts

Definitions

  • the present invention relates to expression cassettes for transforming Pichia ciferru. More particularly, it relates to expression cassettes containing Pichia ciferru ribosomal DNA fragment, CYH r gene resistant to cycloheximide, and a desired gene, and to uses thereof.
  • Pichia ciferru has been used to biologically desulfurize coals (Stevens et al., USP 4,851,350), to produce D-alpha-amino acids (Takeichi et al, USP 5,068,187), to produce (S)-l-phenyl-l,3-propandiol (Ajinomoto, JP 6-90789A) or to produce secondary alcohols by stereospecific ketone reduction (Merck, EP-300287). Further, it produces and secretes tetraacetyl phytosphingosine (TAPS) which is a precursor of ceramides (Barenholz et al, Biochem. Biophys. Acta, 248, 458, 1971; ibid, 306, 341, 1973).
  • TAPS tetraacetyl phytosphingosine
  • Phytosphingosines including TAPS like ceramides, show an activity of surface skin-protection and of preventing excessive water-loss and dry out of the skin, facilitating their uses in cosmetics. They can be obtained from various microorganisms and easily converted to ceramides by N-acylation.
  • KFCC- 10937 novel useful mutant which allows a larger amount of TAPS production in a shorter time (KR 98-49305 A).
  • Pichia ciferrii had been classified into genus Hansenula and is recently reclassified into genus Pichia by 5S-RNA analysis (Yamada et al, Biosci, Biotechnol Biochem., 58, 1245, 1994). By this reason, the genetic study of the Pichia yeasts is not sufficient and transformation method of Pichia ciferru has not been established.
  • the present invention provides plasmid prACL2 comprising Pichia ciferru serine palmitoyl transferase gene and a transformed Pichia ciferru cell which allows an improved production of TAPS.
  • the inventors succeeded in cloning of Pichia ciferrii GAPDH promoter gene and found that its insertion into the expression cassette allows an unexpected improvement of the expression level. In fact, they increased the production amount of TAPS by transforming the strain of Pichia ciferrii with the expression cassette ca ⁇ ying LCB2 gene as a desired gene and culturing the resulting transformed cells.
  • LCB2 gene codes for palmitoyl transferase which is involved in the TAPS synthesis in the living body.
  • an object of the present invention is to determine and use genetic information of Pichia ciferrii ribosomal protein L41 gene.
  • Another object of the present invention is to provide an expression cassette for transforming Pichia ciferrii, which comprises Pichia ciferrii ribosomal DNA, Pichia ciferrii L41 gene as a selection marker, and a desired gene.
  • the marker is a gene conferring resistance to an antibiotic cycloheximide.
  • Another object of the present invention is to provide a method for transforming Pichia ciferru with a plasmid containing the expression cassette.
  • the present invention determines and uses genetic information of Pichia ciferrii glyceraldehyde-3 -phosphate dehydrogenase (GAPDH) gene and GAPDH promoter gene.
  • GPDH Pichia ciferrii glyceraldehyde-3 -phosphate dehydrogenase
  • the present invention provides an expression cassette for transforming Pichia ciferrii, which comprises Pichia ciferrii ribosomal DNA, Pichia ciferru L41 gene as a selection marker, Pichia ciferrii GAPDH promoter gene and a desired gene.
  • the marker is a gene conferring resistance to an antibiotic cycloheximide.
  • the present invention further provides an expression cassette for transforming Pichia ciferru, which comprises Pichia ciferrii ribosomal DNA, Pichia ciferrii L41 gene as a selection marker, Pichia ciferrii GAPDH promoter gene, a desired gene and
  • the marker is a gene conferring resistance to an antibiotic cycloheximide.
  • the present invention determines and uses genetic information of Pichia ciferrii serine palmitoyl transferase which is involved in TAPS synthesis.
  • the present invention provides plasmid prACL2 comprising an expression cassette having Pichia ciferrii serine palmitoyl transferase gene and a transformed Pichia ciferru cell with an improved production of TAPS.
  • the present invention further provides plasmid prACGL2 comprising an expression cassette having Pichia ciferrii serine palmitoyl transferase gene and a Pichia ciferrii transformant with an improved production of TAPS.
  • the present invention further provides plasmid prHECGL2 comprising an expression cassette having Pichia ciferru serine palmitoyl transferase gene and a Pichia ciferrii transformant with an improved production of TAPS.
  • the present invention still further provides a method for producing TAPS by culturing the transformed Pichia ciferru cells.
  • Figure 1 is a restriction map of various plasmids having Pichia ciferrii ribosomal DNA incorporated with L41 genes of Pichia ciferrii at different sites for each plasmid, in which hatched boxes indicate ribosomal DNA fragments; restriction enzymes in bold letters indicate the enzymes used for linearization of the respective plasmids; arrows indicate the transcription direction of the genes; and plasmid prACL2 carries LCB2 gene coding for serine palmitoyl transferase from Pichia ciferru.
  • Figure 2 is a restriction map of Pichia ciferrii LCB2 gene, and the orientation and the length of the arrows indicate the direction and degree of nucleotide sequencing, respectively.
  • Figure 3 represents the construction and restriction map of plasmid prACL2.
  • Figure 4 is a restriction map of Pichia ciferru GAPDH gene, and the orientation and the length of the arrows indicate the direction and degree of nucleotide sequencing, respectively.
  • Figure 5 represents the construction and restriction map of plasmid prACGL2.
  • Figure 6 represents the construction and restriction map of plasmid prHECGL2.
  • Figure 7 is results of Southern blot analysis carried out to measure the copy number of LCB2 gene transformed into host cell.
  • Kondo et al describes a transformation method for Candida utilis in which an antibiotic resistant gene from yeast is used as a marker gene instead of the conventional bacterial one (Kondo et al., J. Bacteriol., 177, 7171, 1995).
  • the present inventors made attempts to apply such an idea to Pichia ciferrii. For this purpose, they cloned Pichia ciferrii ribosomal protein L41 gene and dete ⁇ nined its nucleotide sequence. Further, they identified 56th arnino acid which is responsible for the sensitivity to cycloheximide is proline and replaced it by glutamine to give cycloheximide-resistance to L41 protein.
  • L41 gene is used as a selection marker.
  • CYH1 and CYH4 were synthesized.
  • CYH1 5'-CGC GTA GTT AAY GTN CCN AAR AC-3'
  • CYH4 5'-GCC TGG CCY TTY TGY TTY TTN TC-3'
  • the two primers are also represented as SEQ. ID. NO. 7 and SEQ. ID. NO. 8, respectively in SEQUENCE LISTING.
  • Pichia ciferrii ATCC 14091 ribosomal protein L41 gene was submitted on March 7, 1998 to GenBank under accession number AF 053457.
  • Pichia ciferru ATCC 14091 ribosomal protein L41 gene has 737 base pairs including 419 bp intron.
  • the putative amino acid sequence deduced from the nucleotide sequence shows a homology of 90% or more to those of other yeasts. It was also identified that the cycloheximide-sensitive amino acid is amino acid 56, proline.
  • L41 gene is indicated by an abbreviation of YT and the cycloheximide-resistant L41 gene is indicated by ⁇ CYH throughout the description.
  • ribosomal DNA was employed. Within the cell, several hundred copies of ribosomal DNA occur. PCR primers were synthesized by using the partial nucleotide sequence of Pichia ciferru ribosomal RNA (Yamada et al, Biosci. Biotechnol Biochem., 58, 1245, 1994). PCR of Pichia ciferrii ATCC 14091 genome DNA was carried out by using the primers to isolate ribosomal DNA fragment of 6.0 kb.
  • the fragment was used as a probe for Southern blot analysis to isolate Pichia ciferrii ATCC 14091 ribosomal DNA fragment of 9 kb, which is inserted into plasmid pBluescript KS+ to produce plasmid prDX9.0.
  • Ribosomal DNA was digested with various restriction enzymes and ligated to CYH r to give various plasmids as shown in Figure 1 which will be analyzed for transformation efficiency in regard with (1) the transcription directions of respective genes; (2) the arrangement of ribosomal DNA and CYH r gene; and (3) the kind of insertion site, ribosomal RNA structural gene or non-transcribed region.
  • prXHNC Ribosomal DNA (3.5 kb) obtained by Xbal digestion is treated with Hpal/Ncol to remove 1.6 kb ribosomal DNA and then ligated to COT.
  • prEHC Ribosomal DNA (3.8 kb) obtained by EcoRI digestion is treated with Hpal to remove 2 kb ribosomal DNA and then ligated to COT.
  • prCEX CYH r is ligated to EcoRI site of 1.1 kb ribosomal DNA obtained by EcoRI/Xbal digestion prCRX CYH r is ligated to EcoRV site of 1.3 kb ribosomal DNA obtained by EcoRV/Xbal digestion prXCH CYH r is ligated to Hpal site of 3.5 kb ribosomal DNA obtained by Xbal digestion prXCE CYH r is ligated to EcoRl site of 3.5 kb ribosomal DNA obtained by Xbal digestion prXHC1.9 COT is ligated to EcoRI site of 1.6 kb ribosomal DNA obtained by Xbal/Hindlll digestion prAC1.9 COT is ligated to EcoRV site of 0.6 kb ribosomal DNA obtained by Hin ⁇ TII/EcoRV digestion prEC1.9 COT is ligated to EcoRI site of 1.4 kb ribosomal DNA obtained by Hindlll EcoRI digestion prHE
  • the letter ⁇ p ⁇ indicates a plasmid
  • Y indicates that the plasmid has a ribosomal DNA
  • ' means for "CYHV
  • the letters 'A' in prAC1.9 and ⁇ " in prEC1.9 indicate restriction enzymes used for liberalization by digesting the ribosomal DNA.
  • X ⁇ means Xbal
  • ⁇ x means EcoRI
  • R ⁇ means EcoRV
  • ⁇ means Hindlll, respectively. Therefore, the plasmid containing these letters in their name comprise ribosomal DNA frgaments digested with these respective restriction enzymes.
  • numerical number after C indicates the size (base pairs) of the L41 gene
  • the letter or ⁇ R ⁇ means the orientaion of ribosomal DNA fragment and COT.
  • the transformation efficiency is shown in Table 2 (Example 17).
  • the data in Table 2 reveals that prHEC1.9F in which the non-transcribed region between 5S and 26S ribosomal RNA structural genes is used as an insertion site has the highest transformation efficiency.
  • An expression plasmid was constructed from an expression cassette comprising LCB2 gene for producing serine palmitoyl transferase and transformed into the mutant Pichia ciferrii KFCC- 10937 to evaluate the TAPS production.
  • the desired gene, LCB2 gene codes for serine palmitoyl transferase, which is involved in TAPS synthesis, and the mutant KFCC- 10937 was developed by the inventors (KR 10
  • Serine palmitoyl transferase (3-ketosphinganine synthase, EC 2.3.1.50) is involved in the first step, which is the rate limiting step of the overall reaction, of the sphingolipids synthesis and forms 3-ketosphinganine having 18 carbon atoms by condensing serine and palmitoyl-CoA (Barenholz et al, Biochem. Biophys. Acta, 248, 458, 1971; ibid, 306, 341, 1973).
  • 3-ketosphmganine serves as one of long-chain compounds in animals and as a precursor for phytosphingosine in plants and fungi.
  • the TAPS production can be significantly improved by integrating multiful copies of LCB2 gene into the chromosome of Pichia ciferrii.
  • the transformed Pichia ciferru cell carrying multiful copies of LCB2 gene on its chromosome produces a large amount of TAPS in a shortened time.
  • probes were prepared with reference to the subunits of the known serine palmitoyl transferase gene.
  • Serine palmitoyl transferase coding gene from Saccharomyces cerevisiae consists of two subunits, LCB1 and LCB2.
  • LCB is abbreviation for long chain base/
  • Pichia ciferrii ATCC 14091 LCB2 gene comprises 1688 base pairs and has no intron.
  • the putative amino acid sequence shows a high homology to that from Saccharomyces cerevisiae.
  • Transmembrane helix region is present spanning the 55th- 79th amino acids.
  • the region containing lysine, which forms Schiff base together with pyridoxal phosphate, has identical amino acids sequence to those of Saccharomyces cerevisiae.
  • Plasmid prACL2 was deposited with Korea Collection of Type Cultures in Taejon on May 4, 1998 according to the
  • Transformation Plasmid prACL2 was transformed into the mutant Pichia ciferrii KFCC- 10937 by following the procedure in the step 5 described above and transformed cells 12 having a high copy number of gene were selected.
  • the transformed cells obtained in the step 7-3 above were cultivated in YGM optimum medium (glycerol 100 g/liter, yeast extract 2 g/liter, KN0 3 3g/liter, (NH 4 ) 2 S0 4 0.5 g/liter, MgS0 4 -7H 2 0 0.3 g/liter, NaCl 0.5 g/liter, CSL 3 g/liter and LS- 300 1 g/liter) for 4(four) days to produce TAPS.
  • YGM optimum medium glycerol 100 g/liter, yeast extract 2 g/liter, KN0 3 3g/liter, (NH 4 ) 2 S0 4 0.5 g/liter, MgS0 4 -7H 2 0 0.3 g/liter, NaCl 0.5 g/liter, CSL 3 g/liter and LS- 300 1 g/liter
  • the transformed cells according to the present invention exhibited TAPS production at least 1.3 times greater than the parent strain KFCC- 10937.
  • GPDH glyceraldehyde-3-phosphate dehydrogenase
  • Glyceraldehyde-3-phosphate dehydrogenase is an essential enzyme involved in glycolysis and converts glyceraldehyde-3 -phosphate into 1,3-bis- phosphogly cerate. It is a constitutively expressed enzyme. Since GAPDH promoter is hardly affected by carbon source, it attracts the researchers in gene manipulation filed (Kniskern et al, Gene, 46, 135, 1986; Travis et al, J. Biol Chem., 260, 4384, 1985; Hallewell et al, Biotechnol, 5, 363, 1987; Rosenberg et al, Method Enzymol., 185, 341, 1990; Waterham et ⁇ /., Gene, 16, 37, 1997).
  • the present inventors cloned Pichia ciferrii GAPDH promoter gene and evaluated whether the insertion of GAPDH promoter increases the expression of the desired genes.
  • GAPDH gene from Saccharomyces cerevisiae 2805 was used to clone
  • GAPDH gene from the genomic DNA of Pichia ciferrii ATCC 14091.
  • plasmid pGH2.2 was constructed ( Figure 4).
  • the nucleotide sequence of GAPDH gene of Pichia ciferrii ATCC 14091 was determined and is 13 represented as SEQ. ID. NO. 5 together with its putative amino acid sequence (SEQ. ID. NO. 6) in SEQUENCE LISTING. This sequence was submitted on March 7, 1998 to GenBank under accession number of AF053300.
  • Pichia ciferrii ATCC 14091 GAPDH gene comprises 1004 base pairs and has no intron.
  • the nucleotide sequence and the putative amino acid sequence show 69.3% and 76.2% homology to that from Saccharomyces cerevisiae, respectively. This suggests that Pichia ciferrii ATCC 14091 GAPDH gene is new.
  • PCR using plasmid pGH2.2 and primers (primer Nos. 3 and 4; SEQ. ID. NO. 9 and SEQ. ID. NO. 10, respectively in SEQUENCE LISTING) was performed to isolate Pichia ciferrii GAPDH promoter gene (600 bp). This gene was inserted into EcoRV site of pT7-Blue T-vector to give plasmid pT7GH.
  • LCB2 gene free of its own promoter was isolated from plasmid pL2SA by following the procedure in Figure 5.
  • the gene has a size of 2.3 kb. It was inserted into BamHI site of pT7GH to give plasmid ⁇ GAL2.
  • LCB2 gene of 2.9 kb was isolated from plasmid pGAL2 by following the procedure in Figure 5 and inserted into Eco47III/XbaI site of prHEC1.9F to give plasmid prACGL2.
  • Plasmid prACGL2 has the Pichia ciferrii ribosomal DNA fragment
  • CYH r (L41), GAPDH promoter gene and LCB2 gene, linked to each other, in this order. Its restriction map is depicted in Figure 5. Plasmid prACGL2 was deposited with Korea Collection of Type Cultures in Taejon on June 25, 1998 according to the Budapest Treaty on the International Recognition of the Deposit of Microorganisms 14 for the Purposes of Patent Procedure and given an accession number of KCTC- 0498BP.
  • the host cell e.g., strain of Pichia ciferrii
  • the resulting transformed cell will carry genes from Pichia ciferrii as well as other undesired regions of the starting bacterial plasmid since the plasmid is treated with only one restriction enzyme for linearization prior to the transformation into the host cell.
  • the present inventors add Pichia ciferrii ribosomal DNA fragment (800 bp) at the downstream of LCB2 gene of plasmid prACGL2.
  • prHECGL2 plasmid
  • Plasmid prHECGL2 has the Pichia ciferrii ribosomal DNA fragment, CYH r (L41), GAPDH promoter gene, LCB2 and Pichia ciferrii ribosomal DNA fragment, operably linked to each other, in this order. Its restriction map is depicted in Figure 6. Plasmid prHECGL2 was deposited with Korea Collection of Type Cultures in Taejon on August 10, 1998 according to the Budapest Treaty on the International Recognition of the Deposit of Microorganisms for the Purposes of Patent Procedure and given an accession number of KCTC-0511BP.
  • the resulting transformed cell carry only genes from Pichia ciferrii by treating the plasmid by proper restriction enzymes to cut both of the Pichia ciferrii ribosomal DNAs. That is to say, when the plasmid prHECGL2 is transformed into Pichia ciferrii, the obtained transformed cell Pichia ciferrii will carry only endogenous genes.
  • Transformation Cells of Pichia ciferrii KFCC- 10937 and plasmid prACL2, prACGL2 and prHECGL2 were mixed, respectively and electroporation was performed at voltage 500V, capacity 50 ⁇ F and resistance 800 ⁇ so as to transform the cells with the 15 plasmid.
  • the transformed cells obtained in the step 8-6 above were cultivated in YGM optimum medium (glycerol 100 g/liter, yeast extract 2 g/liter, KN0 3 3g/liter, (NH 4 ) 2 S0 4 0.5 g/hter, MgS0 4 -7H 2 0 0.3 g/hter, NaCl 0.5 g/hter, CSL 3 g/liter and LS- 300 1 g/liter) to produce TAPS.
  • YGM optimum medium glycerol 100 g/liter, yeast extract 2 g/liter, KN0 3 3g/liter, (NH 4 ) 2 S0 4 0.5 g/hter, MgS0 4 -7H 2 0 0.3 g/hter, NaCl 0.5 g/hter, CSL 3 g/liter and LS- 300 1 g/liter
  • TAPS production at least 2.1 times and at least 1.5 times greater than the parent strain KFCC-10937 and than the transformed cell with plasmid prACL2 (KCTC-0468BP), respectively.
  • SEQ.ID.NO. 7 is an artificial sequence for PCR primer CYH1.
  • SEQ.ID.NO. 8 is an artificial sequence for PCR primer CYH4.
  • SEQ.ID.NO. 9 is an artificial sequence for PCR primer No. 3 which is used for isolation of GAPDH promoter gene.
  • SEQ.ID.NO. 10 is an artificial sequence for PCR primer No. 4 which is used for isolation of GAPDH promoter gene.
  • SEQ.ID.NO. 11 is an artificial sequence for PCR primer CH-f.
  • SEQ.ID.NO. 12 is an artificial sequence for PCR primer CH-r.
  • SEQ.ID.NO. 13 is an artificial sequence for PCR primer 18R.
  • SEQ.ID.NO. 14 is an artificial sequence for PCR primer 26F.
  • SEQ.ID.NO. 15 is an artificial sequence for PCR primer L2f.
  • SEQ.ID.NO. 16 is an artificial sequence for PCR primer L2r.
  • SEQ.ID.NO. 17 is an artificial sequence for PCR primer No. 1 which is used 16 for isolation of GAPDH gene.
  • SEQ.ID.NO. 18 is an artificial sequence for PCR primer No. 2 which is used for isolation of GAPDH gene.
  • Example 1 Isolation of genomic DNA from Pichia ciferrii ATCC 14091.
  • SDS-TE solution 2% SDS, 50mM EDTA in IM Tris-Cl, pH 8.0
  • SDS-TE solution 2% SDS, 50mM EDTA in IM Tris-Cl, pH 8.0
  • a twice volume of ethanol was added to the supernatant obtained by centrifuging at 8,000 rpm for 15 minutes.
  • the resulting pellets were dissolved in TE solution containing RNase to extract Pichia ciferrii genomic DNA.
  • Example 2 Isolation of L41 gene from Pichia ciferrii ATCC 14091 Two following primers CYH1 and CYH4 were synthesized.
  • This fragment was labeled with DIG-labeling and detection kit (Boehringer Mannheim) by following the manufacturer's manual to give a probe.
  • Genomic DNA of Pichia ciferru obtained in Example 1 was digested with various restriction enzymes, and the digestion products were subjected to 0.9% agarose gel electrophoresis and transferred to Nytran R membrane (Schleicher & Schuell) followed by hybridization with a hybridization solution (5X SSC, 0.1% N- laurylsarcosine, 0.02% SDS, 2% blocking agent and 30% formaldehyde) using probes obtained in Example 2. The hybridization was carried out at 42°C for 6 hours according to the manufacturer's manual prepared by Boehringer Mannheims.
  • Antibodies coupled to alkaline phosphatase were introduced and BCIP and X- phosphate were added. Violet-stained band was observed. Band is detected at 1.9 kb size of genomic DNA treated with EcoRI. This
  • This library was repeatedly subjected to Southern blot analysis to isolate 1.9 kb gene fragment containing L41 gene(plasmid pCYH1.9). Nucleotide sequencing was performed for this plasmid using Automatic sequencer Model 373 A (Applied Biosystem). The result is represented as SEQ. ID. NO. 1 together with its putative amino acid sequence (SEQ. ID. NO. 2) in SEQUENCE LISTING. This sequence was submitted on March 7, 1998 to GenBank under accession number of AF053457.
  • L41 gene of Pichia ciferrii ATCC 14091 consists of 737 base pairs including 419 bp intron.
  • the amino acid residue 56 is proline.
  • Example 4 Construction of plasmid pCYH1.9 r in which proline (aa 56) is replaced 18 by glutamine.
  • Primer CH-r ATG GAA AAC TTG TTT GGT TTG ACC
  • SEQ .ID. NO. 11 SEQ. ID. NO.
  • Combinations of universal primer and primer CH-r, and of reverse primer and primer CH-f were employed for PCR using Pfu DNA polymerase and pCYHl.9 as a template to obtain two PCR products of 1.2 kb and 0.7 kb. PCR was performed again using the two PCR products (1.2 kb and 0.7 kb), and universal and reverse primers to obtain plasmid pCYH1.9 r in which proline (aa 56) is replaced by glutamine.
  • Example 5 Construction of plasmid prDX9.0 containing ribosomal DNA fragment Two following primers 18R and 26F were synthesized.
  • Primer 18R 5'-CAA TAA TTG CAA TGC TCT ATC CCC AGC ACG-3'
  • Primer 26F 5'-GGA TAT GGA TTC TTC ACG GTA ACG TAA CTG-3'
  • PCR was performed using the two primers and Pichia ciferru genomic DNA obtained in Example 1 to give a PCR product of 6.0 kb. This PCR product was labeled in the same manner as in Example 2 to give a probe.
  • Plasmid prDX9.0 obtained in Example 5 was treated with Xbal to obtain 3.5 kb ribosomal DNA, which is then inserted into plasmid pBluescript KS+.
  • the resulting recombinant plasmid is treated with Hpal/Ncol/Klenow to remove 1.6 kb ribosomal DNA and linked to 1.9 kb CYH r gene, which was obtained by digesting plasmid pCYH1.9 r in Example 4 with EcoRI/Klenow, to obtain plasmid prXHNC.
  • Plasmid prDX9.0 obtained in Example 5 was treated with EcoRI to obtain 3.8 kb ribosomal DNA, which is then inserted into plasmid pBluescript KS+.
  • the resulting recombinant plasmid is treated with Hpal to remove 2 kb ribosomal DNA and linked to 1.9 kb CYH r gene, which was obtained by digesting plasmid pC YH 1.9 r in Example 4 with EcoRI/Klenow, to obtain plasmid prEHC.
  • Plasmid prDX9.0 obtained in Example 5 was treated with EcoRI/Xbal to obtain 1.1 kb ribosomal DNA.
  • 1.9 kb C Y ⁇ gene which was obtained by digesting plasmid pCYHl ⁇ in Example 4 with EcoRI/Klenow, was linked to EcoRI site of the 1.1 kb ribosomal DNA to give plasmid prCEX.
  • Plasmid prDX9.0 obtained in Example 5 was treated with EcoRV/Xbal to obtain 1.3 kb ribosomal DNA.
  • 1.9 kb CYH r gene which was obtained by digesting plasmid pCYH1.9 r in Example 4 with EcoRI/Klenow, was linked to EcoRV site of 20 the 1.3 kb ribosomal DNA to give plasmid prCRX.
  • Plasmid prDX9.0 obtained in Example 5 was treated with Xbal to obtain 3.5 kb ribosomal DNA.
  • 1.9 kb CYH r gene which was obtained by digesting plasmid pCYH1.9 r in Example 4 with EcoRI/Klenow, was linked to Hpal site of the 3.5 kb ribosomal DNA to give plasmid prXCH.
  • Example 11 Construction of plasmid prXCE Plasmid prDX9.0 obtained in Example 5 was treated with Xbal to obtain 3.5 kb ribosomal DNA. 1.9 kb CYH r gene, which was obtained by digesting plasmid pCYHl ⁇ in Example 4 with EcoRI, was linked to EcoRI site of the 3.5 kb ribosomal DNA to give plasmid prXCE.
  • Plasmid prDX9.0 obtained in Example 5 was treated with Xhol/Hindlll to obtain 1.6 kb ribosomal DNA.
  • a plasmid containing this 1.6 kb ribosomal DNA was digested with HmdIII/Klenow to give ribosomal DNA.
  • 1.9 kb CYH r gene which was obtained by digesting plasmid pCYH1.9 r in Example 4 with EcoRI, was linked to EcoRI site of the Hindlll/Klenow digestion product to give plasmid prXHC 1.9.
  • Plasmid prDX9.0 obtained in Example 5 was treated with Hindlll/EcoRV to obtain 0.6 kb ribosomal DNA.
  • 1.9 kb CYH r gene which was obtained by digesting plasmid pCYH1.9 r in Example 4 with EcoRI/Klenow, was linked to EcoRV site of the 0.6 kb ribosomal DNA to give plasmid prAC1.9. 21
  • Plasmid prDX9.0 obtained in Example 5 was treated with Hindlll/EcoRI to obtain 1.4 kb ribosomal DNA.
  • 1.9 kb CYH r gene which was obtained by digesting plasmid pCYHl ⁇ in Example 4 with EcoRI, was linked to EcoRI site of the 1.4 kb ribosomal DNA to give plasmid prXCH.
  • Plasmid prDX9.0 obtained in Example 5 was treated with Hindlll/EcoRI to obtain 1.4 kb ribosomal DNA.
  • 1.9 kb CYH r gene which was obtained by digesting plasmid pCYH1.9 r in Example 4 with EcoRI/Klenow, was linked to EcoRV site of the 1.4 kb ribosomal DNA to give plasmid prHEC1.9F.
  • Example 15 The procedure in Example 15 was repeated except that the insertion orientation of C YH r was opposite to that of Example 5 to obtain plasmid prHEC 1.9R
  • Example 17 Transformation efficiency of plasmids.
  • linear prHEC 1.9 obtained after treating with Apal/Scal was transformed by following the 23 procedure in Example 17 except that the voltage was changed to 500, 600 or 700V and the resistance to 100, 200, 300, 400, 500, 600, 700 or 800 ⁇ while keeping the capacity of 50 ⁇ F.
  • the results are shown in Table 3.
  • Example 19 Analysis of transformed cell by Southern blot analysis
  • Each of transformed cells selected in Example 17 was inoculated into YEPD medium to which 5 ⁇ g/mL of cycloheximide was added and subjected to cultivation while agitation at 25°C for 18 - 20 hours, followed by centrifugation to collect cell pellets.
  • YEPD medium 5 ⁇ g/mL of cycloheximide was added and subjected to cultivation while agitation at 25°C for 18 - 20 hours, followed by centrifugation to collect cell pellets.
  • STES solution 0.5M NaCl, 0.01M EDTA, 1% SDS in 0.2M Tris-Cl, pH 7.6
  • Primer L2f 5'-ATG AGT ACT CCT GCA AAC TA-3'
  • Primer L2r 5'-TAA CAA AAT ACT TGT CGT CC-3'
  • PCR was performed using the two primers and the Saccharomyces cerevisiae genomic DNA obtained in the above to give LCB2 gene fragment of about 1680 bp.
  • the Sail fragment of 913bp was labeled with DIG-labeling and detection kit (Boehringer Mannheim) by following the manufacturer's manual to give a probe.
  • Genomic DNA of Pichia ciferrii obtained in Example 1 was digested with various restriction enzymes, BamHI, EcoRI, EcoRV, Hindlll, PstI or Sail, and the digestion products were subjected to electrophoresis in TAE buffer and transferred to Nytran R membrane (Schleicher & Schuell) followed by Southern blot analysis.
  • various restriction enzymes BamHI, EcoRI, EcoRV, Hindlll, PstI or Sail
  • the Southern blot analysis was carried out using a hybridization solution (5X SSC, 0.1%N-laurylsarcosine, 0.02% SDS, 2% blocking agent and 30% formamide) at 42°C for 6 hours according to the manufacturer ' s manual prepared by Boehringer Mannheims.
  • Antibodies coupled to alkaline phosphatase were introduced and BCIP and X- phosphate were added. Violet color-stained bands were observed.
  • This library was repeatedly subjected to Southern blot analysis to isolate 3.0 kb Sacl/Afllll fragment containing LCB2 gene(plasmid pL2SA).
  • LCB2 gene of Pichia ciferrii ATCC 14091 consists of 1688 base pairs without intron, and its putative amino acid sequence shows a high homology to that of Saccharomyces cerevisiae.
  • Plasmid prACL2 has the Pichia ciferrii ribosomal DNA fragment, CYH r (L41) and LCB2 gene, linked to each other, in this order. Plasmid prACL2 was deposited with Korea Collection of Type Cultures in Taejon on May 4, 1998 according to the Budapest Treaty on the International Recognition of the Deposit of Microorganisms for the Purposes of Patent Procedure and given an accession number of KCTC-
  • Plasmid prACL2 was linearized with Apal and transformed into the mutant Pichia ciferrii KFCC- 10937 by following the procedure in Example 17. 10 2 - 10 3 colonies per ⁇ g of plamid were formed. Twelve largest colonies were selected.
  • Genomic DNA (2 - 3 ⁇ g) was dissolved into 50 ⁇ L of distilled water, treated with EcoRI, and subjected to electrophoresis on 0.8% agarose gel. Southern blot analysis was carried out by using L41 gene in Example 2 as a probe to detect bands.
  • Comparative Example 1 TAPS production by strain KFCC- 10937 cultivation
  • the parent strain KFCC-10937 was cultivated in lOOmL of YGM optimum medium (glycerol 100 g/liter, yeast extract 2 g/liter, KN0 3 3g/liter, (NH 4 ) 2 S0 4 0.5 g/hter, MgS0 4 -7H 2 0 0.3 g/liter, NaCl 0.5 g/liter, CSL 3 g/liter and LS-300 1 g/liter) at 25°C and 250 rpm for 4 days. After standing at 25 C for 2 days, 4 volumes of mixed solvent of chlorofoim/methanol (1:1) was added to separate phases and extract TAPS.
  • YGM optimum medium glycerol 100 g/liter, yeast extract 2 g/liter, KN0 3 3g/liter, (NH 4 ) 2 S0 4 0.5 g/hter, MgS0 4 -7H 2 0 0.3 g/liter,
  • TAPS was analyzed on HPLC using ELSD(Electron Light Scanning Detector).
  • ELSD Electrode Light Scanning Detector
  • solvent a mixture of iso-octane and THF/formic acid (100: 1.5) varying its ratio 9: 1, 7:3 and then 9: 1 was used.
  • Example 22 TAPS production by Transformed cell 1
  • Transformed cell 1 obtained in Example 20 was cultivated in the same condition and manner as in Comparative Example 1 to produce TAPS.
  • Primer 1 5'-ATG GTT AGA GTT GCT ATT AAC G-3'
  • Primer 2 5'-AAG CCT TGG CAA TGT GTT CAA-3'
  • PCR was performed using the two primers to isolate 1 kb GAPDH gene from Saccharomyces cerevisiae 2805 (provided by courtesy of RB.Wickner at NIH) .
  • the gene was inserted into EcoRV site of plasmid pT7-Blue T-vector (Novagen) to obtain plasmid pT7-SGH.
  • Plasmid pT7-SGH was digested with Xbal and Sail to give 0.9 kb gene fragment, which was labeled with DIG-labeling and detection kit (Boehringer Mannheim) by following the manufacturer' s manual to give a probe. 29
  • Genomic DNA of Pichia ciferrii obtained in Example 1 was digested with various restriction enzymes, BamHI, EcoRI, EcoRV, Hindlll, PstI or Sail, and the digestion products were subjected to electrophoresis on 0.9% agarose gel and
  • the Southern blot analysis was carried out using a hybridization solution (5X SSC, 0.1% N-laurylsarcosine, 0.02% SDS, 2% blocking agent and 30% formamide) at 42°C for 6 hours according to the manufacturer's manual prepared by Boehringer 10 Mannheim.
  • Antibodies coupled to alkaline phosphatase were introduced and BCIP and X- phosphate were added. Violet color-stained bands were observed at about 6 kb sized fragment of the genomic DNA treated with HindTII/EcoRI.
  • This DNA fragment (about 6 kb) was collected and inserted into plasmid 15 pBluescript KS+ (Stratagene) and transformed into E. coli DH5 ⁇ to establish a library. This library was repeatedly subjected to Southern blot analysis to isolate 6.0 kb Afllll/Hindlll fragment containing GAPDH gene(plasmid pGH2.2).
  • Pichia ciferrii ATCC 14091 GAPDH gene comprises 1004 base pairs and has no intron.
  • the nucleotide sequence and the putative amino acid sequence show 25 69.3% and 76.2% homology to that from Saccharomyces cerevisiae, respectively.
  • Example 25 Isolation of Pichia ciferrii GAPDH promoter gene
  • Primer 3 5'-GAT ATC TAC ATA CAA TTG ACC CAT AG-3'
  • Primer 4 5'-GGA TCC TTA ATT ATT TGT TTG TTT-3'
  • Example 26 Isolation of LCB2 gene free of its own promoter Plasmid pL2SA obtained in Example 20 was treated with Afllll to give promoter-free LCB2 gene (2.3 kb). This 2.3 kb gene was treated with Klenow and inserted into plasmid pBluescript KS+ treated with BamHI/Klenow to give plasmid pL2B2.3. ( Figure 5)
  • Plasmid pL2B2.3 was digested with BamHI to give 2.3 kb LCB2 gene, which was inserted to BamHI site of plasmid pT7GH in Example 4 to give pGAL2.
  • Plasmid prHEC 1.9F obtained in Example 15 was linearized by treating with Eco47III and Xbal.
  • GAPDH ⁇ romoter/LCB2 gene (2.9 kb) obtained by treating plasmid pGAL2 (Examlple 26) with EcoRV and Xbal was inserted to the linear plasmid prHEC1.9F to give prACGL2. ( Figure 5)
  • Plasmid prACGL2 has the Pichia ciferrii ribosomal DNA fragment, CYH r (L41), GAPDH promoter gene and LCB2 gene, linked to each other, in this order. Plasmid prACGL2 was deposited with Korea Collection of Type Cultures in Taejon on June 25, 1998 according to the Budapest Treaty on the International Recognition of the Deposit of Microorganisms for the Purposes of Patent Procedure and given an accession number of KCTC-0498BP. 31
  • Plasmid pCYH1.9 r obtained in Example 4 was linearized by treating with Eco47III and Xbal.
  • GAPDH promoter/LCB2 gene (2.9 kb) obtained by treating plasmid pGAL2 (Examlple 26) with EcoRV and Xbal was inserted to the linear plasmid pCYH1.9 r to give pCHGL2. ( Figure 6).
  • Plasmid prHECGL2 has a structure that it contains additional Pichia ciferru ribosomal DNA fragment (800 bp) linked at downstream of LCB2 gene of plasmid prACGL2. That is to say, plasmid prHECGL2 contains Pichia ciferrii ribosomal
  • Plasmid prHECGL2 was deposited with Korea Collection of Type Cultures in Taejon on August 10, 1998 according to the Budapest Treaty on the International Recognition of the Deposit of Microorganisms for the Purposes of Patent Procedure and given an accession number of KCTC-051 IBP.
  • Plasmid prHECGL2 is distinguished from and advantagous over plasmid prACGL2 that the former introduces only Pichia ciferrii endogenous genes onto the chromosome of Pichia ciferrii transformed cell while the latter introduces Pichia ciferrii endogenous genes together with bacterial genes (originated from plasmid pBluescript KS+) when they are used to transform Pichia ciferrii.
  • Plasmid prACGL2 (Example 27) and prHECGL2 (Example 27) were linearized with Apal and Apal/Scal, respectively. Then, these linear plasmids were transformed into Pichia ciferrii KFCC- 10937 by following the procedure in Example
  • Each of transformed cells was inoculated into YEPD medium to wich 5 ⁇ g/mL of cycloheximide was added and subjected to cultivation while agitation at 25°C for 18 - 20 hours, followed by centrifugation to collect cell pellets.Thus obtained cells were placed in 1.5 mL tubes. Cells were suspended in 30 ⁇ L of STES solution (0.5M NaCl, 0.01M EDTA, 1% SDS in 0.2M Tris-Cl, pH 7.6) and 0.8 volumes of glass beads (diameter 0.4 mm) were added thereto.
  • STES solution 0.5M NaCl, 0.01M EDTA, 1% SDS in 0.2M Tris-Cl, pH 7.6
  • the mixtures were stirred for 5 minutes, 200 ⁇ L of TE buffer (ImM EDTA in lOmM Tris-Cl, pH 8.0) and 200 ⁇ L of phenol/chloroform/isoamylalcohol (25:24: 1) were added. The resulting mixtures were stirred for 2 minutes and centrifuged at 12,000 rpm. Two and half (2.5) volumes of ethanol was added to the supernatant to precipitate genomic DNA and dried.
  • TE buffer ImM EDTA in lOmM Tris-Cl, pH 8.0
  • phenol/chloroform/isoamylalcohol 25:24: 1
  • Genomic DNA (2 - 3 ⁇ g) was dissolved into 50 ⁇ L of distilled water, treated with Hindlll, EcoRI or Xbal, and subjected to electrophoresis on 0.8% agarose gel.
  • Southern blot analysis was carried out by using DIG-labeled L41 gene, DIG-labeled LCB2 gene or DIG-labeled GAPDH promoter gene as a probe to detect bands( Figure 7). It was observed that about 4 - 5 copies of the genes are carried on genomic DNA of all transformed cells.
  • Each one of the respective prACGL2-transformed and prHECGL2-transformed cells is picked up and named as 'Transformed cell 2' and 'Transformed cell 3,' respectively.
  • Transformed cell 2 obtained in Example 28 was cultivated in the same condition and manner as in Comparative Example 1 to produce TAPS.
  • TAPS production is shown in Table 5.
  • Example 30 and Comparative Example 2 TAPS production by Transformed cell 3 Transformed cell 2 obtained in Example 28 or parent strain of Pichia ciferrii was cultivated in YMGL medium (yeast extract 3 g/L, malt extract 3 g/L, glycerol 30 g/L) under the same conditions as that in Comparative Example 1 to produce TAPS. TAPS productions are shown in Table 6.
  • the present invention has following advantages:
  • the expression cassette of the present invention allows a maximized 34 integration of desired genes into chromosome of host Pichia ciferrii cells.
  • Plasmid prACL2 according to the present invention has 0.6 kb Pichia ciferrii ribosomal DNA fragment, CYH r (L41) and LCB2 gene coding for serine palmitoyl transferase, operatively linked to each other, in this order. It shows a good efficiency of transformation into host cells and the resulting transformed cells show at least 1.3 times greater TAPS production than the parent strain.
  • Plasmid prACGL2 according to the present invention has 0.6 kb Pichia ciferrii ribosomal DNA fragment, CYH r (L41), glyceraldehyde-3-phosphate dehydrogenase (GAPDH) promoter gene and LCB2 gene, and plasmid prHECGL2 has further Pichia ciferrii ribosomal DNA fragment of 800 bp at the downstream of the LCB2 gene in plasmid prACGL2.
  • These plasmids show an excellent transformation efficiency as well as show TAPS production at least 2.1 times greater than the parent strain KFCC-10937 due to an increased expression of LCB2 gene by action of GAPDH promoter.

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Abstract

L'invention concerne des cassettes d'expression utilisées pour transformer Pichia ciferrii, et leur utilisation. La présente invention concerne des cassettes d'expression contenant un fragment d'ADN liposomique de Pichia ciferrii, un gène CYHr résistant au cycloheximide, et un gène désiré. L'invention concerne également une cassette d'expression comprenant en outre un gène promoteur GAPDH de Pichia ciferrii qui permet une augmentation de l'expression du gène désiré. De plus, l'invention concerne un procédé permettant de produire de la tétraacétylphytosphingosine au moyen de cellules de Pichia ciferrii transformées et desdites cassettes d'expression, avec un rendement plus élevé.
EP98951798A 1998-05-07 1998-10-31 PLASMIDE POUR L'EXPRESSION DANS $i(PICHIA CIFERRII), ET PROCEDE DE TRANSFORMATION FAISANT APPEL A CE PLASMIDE Withdrawn EP1076707A1 (fr)

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KR1019980016309A KR100267668B1 (ko) 1998-05-07 1998-05-07 피치아 시페리 유래의 세린 팔미토일 트랜스퍼라제를 코딩하는유전자 및 이를 이용한 taps 생산방법
KR9816309 1998-05-07
KR1019980016310A KR100267666B1 (ko) 1998-05-07 1998-05-07 피치아 시페리용 발현 플라스미드
KR9816310 1998-05-07
KR1019980033969A KR100287483B1 (ko) 1998-08-21 1998-08-21 피치아 시페리 유래의 글리세르알데히드-3-인산 탈수소효소 프로모터 유전자 및 이를 이용한 taps 생산방법
KR9833969 1998-08-21
PCT/KR1998/000346 WO1999057279A1 (fr) 1998-05-07 1998-10-31 Plasmide pour l'expression dans pichia ciferrii, et procede de transformation faisant appel a ce plasmide

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CN1301747A (zh) * 1999-12-27 2001-07-04 上海博德基因开发有限公司 一种新的多肽——核糖体s19e蛋白10和编码这种多肽的多核苷酸
ITMI20011728A1 (it) * 2001-08-06 2003-02-06 Consorzio Per Le Ricerche E Lo Vettore per l'integrazione sito-specifica di sequenze di dna eterologhe in lieviti metilotrofi
JP5156933B2 (ja) 2004-11-05 2013-03-06 エヴォニク インダストリーズ アーゲー スフィンゴイド塩基又はその誘導体を生産する微生物株
EP1854878A1 (fr) * 2006-05-10 2007-11-14 Cosmoferm B.V. Méthodes et matériel pour la transformation de la levure Pichia ciferri
US8440456B2 (en) * 2009-05-22 2013-05-14 Vib, Vzw Nucleic acids of Pichia pastoris and use thereof for recombinant production of proteins
JP6219064B2 (ja) * 2012-05-22 2017-10-25 花王株式会社 セリンパルミトイルトランスフェラーゼ
JP6305735B2 (ja) * 2013-11-19 2018-04-04 花王株式会社 セラミド生産性向上方法およびセラミド製造方法
EP3184639B1 (fr) * 2014-08-21 2019-06-12 Chung-Ang University Industry-Academy Cooperation Foundation Ensemble de cassette d'insertion multiple de gènes à base de rdna nts et souche de levure recombinée de qualité gras
JP6553963B2 (ja) * 2014-09-05 2019-07-31 花王株式会社 改変スターメレラ属微生物

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DE3724197A1 (de) 1987-07-22 1989-02-02 Merck Patent Gmbh Verfahren zur reduktion von ketonen
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